Multi-omics dissection of tumor microenvironment-mediated drug resistance: mechanisms and therapeutic reprogramming by Fanghua Chen, Fanghua Chen, Yuandong Fu, Yuandong Fu, Gaigai Bai, Gaigai Bai, Junjun Qiu, Junjun Qiu, Keqin Hua, Keqin Hua

“…Advances in multi-omics technologies now enable a comprehensive, multi-dimensional analysis of these interactions, integrating genomic, epigenomic, transcriptomic, proteomic, and metabolomic data to uncover critical molecular networks and vulnerabilities. …”
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Effects of cold environment exposure on female reproductive health and its regulatory mechanisms by Hongyi Sun, Qianqian Zhao, Xiaolan Liang, Yalun He, Yangshuo Li, Jin Yu, Jie Ding, Chaoqin Yu

“…Ovarian and uterine tissues were collected via surgical procedures, and transcriptomic sequencing was performed to explore potential regulatory mechanisms. …”
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Impact of c-di-AMP Accumulation, L-cysteine, and Oxygen on Catalase Activity and Oxidative Stress Resistance of <i>Listeria monocytogenes</i> 10403S by Mahide Muge Yilmaz Topcam, Dimitrios P. Balagiannis, Kimon Andreas G. Karatzas

“…However, in the late stationary phase, while the catalase activity levels of Δ<i>pdeA</i> remained stable (~6.33 cm foam height), it became resistant to oxidative stress (5.85 log reduction). …”
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Theranostic Applications of Taurine-Derived Carbon Dots in Colorectal Cancer: Ferroptosis Induction and Multifaceted Antitumor Mechanisms by Zhang R, Lan S, Jia M, Liu F, Wang M, Jin Q, Su L, Liu G

“…Treatment with Tau/CDs induced cell cycle arrest and apoptosis in vitro, while in vivo administration robustly suppressed tumor growth in xenograft models. …”
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The glycosaminoglycan chains of perlecan regulate the perivascular fluid transport by Abhishek Singh, Mika Kaakinen, Harri Elamaa, Vesa Kiviniemi, Lauri Eklund

“…Potentially deleterious effects on brain homeostasis were investigated using transcriptomic, proteomic and immunohistochemical methods. …”
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Oxygen level alters energy metabolism in bovine preimplantation embryos by Nina Boskovic, Marilin Ivask, Gamze Yazgeldi Gunaydin, Barış Yaşar, Shintaro Katayama, Andres Salumets, Tõnis Org, Ants Kurg, Karolina Lundin, Timo Tuuri, Carsten O. Daub, Juha Kere

“…In hypoxia, 36% of embryos reached blastocyst stage while in normoxia only 13%. In ultrahypoxia conditions only 4.6% of embryos developed up to blastocyst stage. …”
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Repair of infarcted myocardium by skeletal muscle-derived mesenchymal stromal cells delivered by a bioprinted collagen patch by Rose Guesdon, Serena Santoro, Audrey Cras, Etienne Pagin, Didier Serteyn, Justine Ceusters, Fabien Guillemot, Albert Hagège, Philippe Menasché

“…However, autologous sources (bone marrow and adipose tissue) require substantially invasive harvest procedures while allogeneic MSC from the cord raise the issue of batch to batch variability. …”
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aFGF gene-modified adipose-derived mesenchymal stem cells promote healing of full-thickness skin defects in diabetic rats by Yiren Zhu, Pinhua Chen, Zhengchao Zhang, XueYi He, Ruoli Wang, Qi Fang, Zhixian Xu, Wubing He

“…In the 3 × 106 aFGF-ADSCs group, expression levels of aFGF, CD31, and CD163 were significantly higher than in other groups (p < 0.05), while CD86 expression was significantly lower (p < 0.05). …”
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Advancements in multi-omics research to address challenges in Alzheimer’s disease: a systems biology approach utilizing molecular biomarkers and innovative strategies by Madison Cardillo, Madison Cardillo, Keyura Katam, Keyura Katam, Prashanth Suravajhala, Prashanth Suravajhala

“…By 2050, we may see over 115 million people diagnosed with this devastating condition. Unfortunately, while we currently lack effective cures, there are preventative measures that can slow disease progression in symptomatic patients. …”
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Secretory Proteins Are Involved in the Parasitism of Melon by <i>Phelipanche aegyptiaca</i> During the Attachment Stage by Lifeng Xiao, Qiuyue Zhao, Xiaolei Cao, Zhaoqun Yao, Sifeng Zhao

“…This study employed comparative transcriptomics to investigate the mechanisms underlying the parasitism of <i>P. aegyptiaca</i> on melon, focusing on both resistant and susceptible interactions. …”
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Dietary Digestible Protein Requirement in Finishing Pigs: A Study for Experimental Determination and Verification by Shengkai Li, Hui Ma, Jianliang Wu, Jihe Lu, Shiyan Qiao, Xiangfang Zeng, Junyan Zhou

“…Plasma urea nitrogen and total amino acids increased linearly with DP (<i>p</i> < 0.05), while hepatic transcriptomics revealed immune and metabolic partial impairments in high-protein traditional diet pigs, which may be linked to nitrogen overload. …”
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Rare Copy Number Variants Reveal Critical Cell Types and Periods of Brain Development in Neurodevelopmental Disorders by Susmita Malwade, Carl M. Sellgren, Navneet A. Vasistha, Konstantin Khodosevich

“…Methods: We integrated >1 million single-cell transcriptomes from multiple datasets, capturing major brain regions and the entire timeline of human brain development. …”
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Cross-tissue MiRNA profiling of extracellular vesicles and PBMCs from amyotrophic lateral sclerosis patients by Francesca Dragoni, Rosalinda Di Gerlando, Luca Diamanti, Bartolo Rizzo, Matteo Bordoni, Eveljn Scarian, Camilla Viola, Giovanni Cerchia, Susanna Zucca, Orietta Pansarasa, Stella Gagliardi

“…Interestingly, in PBMCs we found mainly neuro-linked pathways, such as neurotransmitters, brain and neuron development, while in EXOs, we found miRNAs implicated in MAPK and ERB signaling. …”
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Identification of critical transition signal (CTS) to characterize regulated stochasticity during ABA-induced growth-to-defense transition by Rasmieh Hamid, Bahman Panahi, Feba Jacob, Amir Ghaffar Shahriari

“…Conclusions By integrating a network-driven transcriptomic analysis, this study provides new insights into the molecular basis of ABA-induced transitions from growth to defense. …”
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Lymphocyte Subpopulations in the Healthy Human Lacrimal Gland and Their Variations With Age and Sex, Systematic Review 1960–2023 by Claudia M. Trujillo‐Vargas, Luisa María Rendón‐Macías, Ronald Yamil Paredes Guerrero, Cinta S. dePaiva, Jaiberth Antonio Cardona‐Arias

“…Three articles reported an association of age and sex with lymphocytic infiltration in the healthy lacrimal gland, while two articles did not. Plasma cells were the most abundant lymphocyte subpopulation in the healthy lacrimal gland, including IgA‐containing plasma cells. …”
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A temperature-induced metabolic shift in the emerging human pathogen Photorhabdus asymbiotica by Elena Lucy Carter, Nicholas R. Waterfield, Chrystala Constantinidou, Mohammad Tauqeer Alam

“…Most insect-restricted species display temperature restriction, unable to grow above 34°C, while Photorhabdus asymbiotica can grow at 37°C to infect mammalian hosts and cause Photorhabdosis. …”
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ReliefSeq: a gene-wise adaptive-K nearest-neighbor feature selection tool for finding gene-gene interactions and main effects in mRNA-Seq gene expression data. by Brett A McKinney, Bill C White, Diane E Grill, Peter W Li, Richard B Kennedy, Gregory A Poland, Ann L Oberg

“…Relief-F is a nonparametric, nearest-neighbor machine learning method that has been successfully used to identify relevant variables that may interact in complex multivariate models to explain phenotypic variation. While several tools have been developed for assessing differential expression in sequence-based transcriptomics, the detection of statistical interactions between transcripts has received less attention in the area of RNA-seq analysis. …”
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Disulfidptosis in pediatric AML: a multi-omics approach to risk stratification and potential therapeutic strategy by Yichen Lei, Jiasi Zhang, Yaqin Wang, Aiguo Liu

“…Machine learning deciphered the biological networks underlying disulfidptosis, while in vitro experiments were performed to further validate. …”
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An in-silico pan-cancer bulk and single-cell profiling of transcription factors in protein autoubiquitination by Angela Dong, Ayana Rasteh, Panpan Wang, Hengrui Liu

“…Additionally, single-cell transcriptomic analysis uncovered cancer-type-specific functional states. …”
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HACD3 promotes malignant progression of NSCLC by suppressing the MKK7/MAPK10 signaling axis by Xiaoying Wang, Huijun Liang, Qindan Du, Ying Li, Yong Zhao

“…Abstract Background HACD3 is from the very long-chain fatty acid dehydratase family and exhibits only mild activity while producing long-chain fatty acids. Numerous studies have uncovered an association of HACD3 with the advancement of diverse cancers. …”
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